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Analysis of eIF4E-family members in fungi contributes to their classification in eukaryotes

Journal of Biological Chemistry
2025-02 | Journal article
DOI: 10.1016/j.jbc.2024.108129
Contributors: Greco Hernández; Daniela Ross-Kaschitza; Gabriel Moreno-Hagelsieb; Alejandra García; Dora Emma Vélez; Blanca Licia Torres
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Crossref

Transcription Factors Across the Escherichia coli Pangenome: A 3D Perspective

2024 | Book chapter
DOI: 10.1007/978-3-031-58072-7_11
Contributors: Gabriel Moreno-Hagelsieb
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Crossref

Thermal Plasticity and Evolutionary Constraints in Bacillus: Implications for Climate Change Adaptation

Biology
2024-12-23 | Journal article
DOI: 10.3390/biology13121088
Contributors: Enrique Hurtado-Bautista; Africa Islas-Robles; Gabriel Moreno-Hagelsieb; Gabriela Olmedo-Alvarez
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Transcription factors across theEscherichia colipangenome: a 3D perspective

2024-02-09 | Preprint
DOI: 10.1101/2024.02.08.579464
Contributors: Gabriel Moreno-Hagelsieb
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Crossref

Fast genome-based delimitation of Enterobacterales species

PLOS ONE
2023-09-14 | Journal article
DOI: 10.1371/journal.pone.0291492
Contributors: Julie E. Hernández-Salmerón; Vittorio Sambri; Tanya Irani; Gabriel Moreno-Hagelsieb
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Crossref

Fast genome-based species delimitation: Enterobacterales and beyond

2023-04-06 | Preprint
DOI: 10.1101/2023.04.05.535762
Contributors: Julie E. Hernández-Salmerón; Tanya Irani; Gabriel Moreno-Hagelsieb
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Comparative analysis of adenylate isopentenyl transferase genes in plant growth-promoting bacteria and plant pathogenic bacteria

Heliyon
2023-03 | Journal article
DOI: 10.1016/j.heliyon.2023.e13955
Contributors: Xin Wei; Gabriel Moreno-Hagelsieb; Bernard R. Glick; Andrew C. Doxey
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Non-synonymous to synonymous substitutions suggest that orthologs tend to keep their functions, while paralogs are a source of functional novelty

PeerJ
2022-08-31 | Journal article
DOI: 10.7717/peerj.13843
Contributors: Juan M. Escorcia-Rodríguez; Mario Esposito; Julio A. Freyre-González; Gabriel Moreno-Hagelsieb
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Crossref

RegulonDB 11.0: Comprehensive high-throughput datasets on transcriptional regulation in <i>Escherichia coli</i> K-12.

Microbial genomics
2022-05-01 | Journal article
DOI: 10.1099/mgen.0.000833
PMID: 35584008
Source: Self-asserted source
Gabo Moreno-Hagelsieb

The Functional Differences between the GroEL Chaperonin of <i>Escherichia coli</i> and the HtpB Chaperonin of <i>Legionella pneumophila</i> Can Be Mapped to Specific Amino Acid Residues.

Biomolecules
2021-12-31 | Journal article
DOI: 10.3390/biom12010059
PMID: 35053207
PMC: PMC8774168
Source: Self-asserted source
Gabo Moreno-Hagelsieb

ANI, Mash and Dashing equally differentiate between Klebsiella species

2021-11-05 | Other
DOI: 10.1101/2021.11.05.467470
Contributors: Julie E. Hernández-Salmerón; Gabriel Moreno-Hagelsieb
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Crossref

PathFams: statistical detection of pathogen-associated protein domains.

BMC genomics
2021-09-14 | Journal article
DOI: 10.1186/s12864-021-07982-8
PMID: 34521345
PMC: PMC8442362
Source: Self-asserted source
Gabo Moreno-Hagelsieb

The Transporter Classification Database (TCDB): 2021 update.

Nucleic acids research
2021-01-01 | Journal article
DOI: 10.1093/nar/gkaa1004
PMID: 33170213
PMC: PMC7778945
Source: Self-asserted source
Gabo Moreno-Hagelsieb

Progress in quickly finding orthologs as reciprocal best hits: comparing blast, last, diamond and MMseqs2

BMC Genomics
2020-12 | Journal article
DOI: 10.1186/s12864-020-07132-6
Contributors: Julie E. Hernández-Salmerón; Gabriel Moreno-Hagelsieb
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Crossref

The volatile organic compound dimethylhexadecylamine affects bacterial growth and swarming motility of bacteria

Folia Microbiologica
2020-06-13 | Journal article
DOI: 10.1007/s12223-019-00756-6
Contributors: Ramiro Martínez-Cámara; Vicente Montejano-Ramírez; Gabriel Moreno-Hagelsieb; Gustavo Santoyo; Eduardo Valencia-Cantero
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Progress in quickly finding orthologs as reciprocal best hits

2020-05-05 | Preprint
DOI: 10.1101/2020.05.04.077222
Contributors: Julie E Hernández-Salmerón; Gabriel Moreno-Hagelsieb
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Crossref

Expansion of the Transporter-Opsin-G protein-coupled receptor superfamily with five new protein families.

PloS one
2020-04 | Journal article
DOI: 10.1371/journal.pone.0231085
PMID: 32320418
PMC: PMC7176098
Contributors: Medrano-Soto A; Ghazi F; Hendargo KJ; Moreno-Hagelsieb G; Myers S; Saier MH
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

An assessment of genome annotation coverage across the bacterial tree of life.

Microbial genomics
2020-03 | Journal article
DOI: 10.1099/mgen.0.000341
PMID: 32124724
PMC: PMC7200070
Contributors: Lobb B; Tremblay BJ; Moreno-Hagelsieb G; Doxey AC
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

The predominance of nucleotidyl activation in bacterial phosphonate biosynthesis.

Nature communications
2019-08 | Journal article
DOI: 10.1038/s41467-019-11627-6
PMID: 31420548
PMC: PMC6697681
Contributors: Rice K; Batul K; Whiteside J; Kelso J; Papinski M; Schmidt E; Pratasouskaya A; Wang D; Sullivan R; Bartlett C et al.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Aldehyde dehydrogenase diversity in bacteria of the Pseudomonas genus.

Chemico-biological interactions
2019-03 | Journal article
DOI: 10.1016/j.cbi.2019.03.006
PMID: 30862475
Contributors: Riveros-Rosas H; Julián-Sánchez A; Moreno-Hagelsieb G; Muñoz-Clares RA
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Environmentally-driven gene content convergence and the Bacillus phylogeny.

BMC evolutionary biology
2018-10 | Journal article
DOI: 10.1186/s12862-018-1261-7
PMID: 30285626
PMC: PMC6171248
Contributors: Hernández-González IL; Moreno-Hagelsieb G; Olmedo-Álvarez G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Non-synonymous to synonymous substitutions suggest that orthologs tend to keep their functions, while paralogs are a source of functional novelty

2018-06-26 | Preprint
DOI: 10.1101/354704
Contributors: Juan M. Escorcia-Rodríguez; Mario Esposito; Julio A. Freyre-González; Gabriel Moreno-Hagelsieb
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Bioinformatic characterization of the Anoctamin Superfamily of Ca2+-activated ion channels and lipid scramblases.

PloS one
2018-03 | Journal article
DOI: 10.1371/journal.pone.0192851
PMID: 29579047
PMC: PMC5868767
Contributors: Medrano-Soto A; Moreno-Hagelsieb G; McLaughlin D; Ye ZS; Hendargo KJ; Saier MH
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

The Membrane Attack Complex/Perforin Superfamily.

Journal of molecular microbiology and biotechnology
2017-11 | Journal article
DOI: 10.1159/000481286
PMID: 29145176
PMC: PMC5796659
Contributors: Moreno-Hagelsieb G; Vitug B; Medrano-Soto A; Saier MH
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Genome Comparison of Pseudomonas fluorescens UM270 with Related Fluorescent Strains Unveils Genes Involved in Rhizosphere Competence and Colonization.

Journal of genomics
2017-08 | Journal article
DOI: 10.7150/jgen.21588
PMID: 28943971
PMC: PMC5607707
Contributors: Hernández-Salmerón JE; Moreno-Hagelsieb G; Santoyo G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Analysis of 58 Families of Holins Using a Novel Program, PhyST.

2016 | Journal article
DOI: 10.1159/000448040
PMID: 27553295
Contributors: Kuppusamykrishnan H; Chau LM; Moreno-Hagelsieb G; Saier MH
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Draft Genome Sequence of the Biocontrol and Plant Growth-Promoting Rhizobacterium Pseudomonas fluorescens strain UM270.

2016 | Journal article
DOI: 10.1186/s40793-015-0123-9
PMID: 26767092
PMC: PMC4711069
Contributors: Hernández-Salmerón JE; Hernández-León R; Orozco-Mosqueda Mdel C; Valencia-Cantero E; Moreno-Hagelsieb G; Santoyo G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Association of host genome with intestinal microbial composition in a large healthy cohort.

2016-11 | Journal article
DOI: 10.1038/ng.3693
PMID: 27694960
Contributors: Turpin W; Espin-Garcia O; Xu W; Silverberg MS; Kevans D; Smith MI; Guttman DS; Griffiths A; Panaccione R; Otley A et al.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Plant growth-promoting bacterial endophytes.

2016-02 | Journal article
DOI: 10.1016/j.micres.2015.11.008
PMID: 26805622
Contributors: Santoyo G; Moreno-Hagelsieb G; Orozco-Mosqueda Mdel C; Glick BR
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

The Transporter Classification Database (TCDB): recent advances.

2016-01 | Journal article
DOI: 10.1093/nar/gkv1103
PMID: 26546518
PMC: PMC4702804
Contributors: Saier MH; Reddy VS; Tsu BV; Ahmed MS; Li C; Moreno-Hagelsieb G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Predicting Functional Interactions Among Genes in Prokaryotes by Genomic Context.

2015 | Journal article
DOI: 10.1007/978-3-319-23603-2_5
PMID: 26621463
Contributors: Moreno-Hagelsieb G; Santoyo G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Remote homology and the functions of metagenomic dark matter.

2015 | Journal article
DOI: 10.3389/fgene.2015.00234
PMID: 26257768
PMC: PMC4508852
Contributors: Lobb B; Kurtz DA; Moreno-Hagelsieb G; Doxey AC
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

The power of operon rearrangements for predicting functional associations.

2015 | Journal article
DOI: 10.1016/j.csbj.2015.06.002
PMID: 26199682
PMC: PMC4506987
Contributors: Moreno-Hagelsieb G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

The functional landscape bound to the transcription factors of Escherichia coli K-12.

2015-06 | Journal article
DOI: 10.1016/j.compbiolchem.2015.06.002
PMID: 26094112
Contributors: Pérez-Rueda E; Tenorio-Salgado S; Huerta-Saquero A; Balderas-Martínez YI; Moreno-Hagelsieb G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Determinants of Intestinal Permeability in Healthy First-Degree Relatives of Individuals with Crohn's Disease.

2015-03 | Journal article
PMID: 25734694
Contributors: Kevans D; Turpin W; Madsen K; Meddings J; Shestopaloff K; Xu W; Moreno-Hagelsieb G; Griffiths A; Silverberg MS; Paterson A et al.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Estimating overannotation across prokaryotic genomes using BLAST+, UBLAST, LAST and BLAT.

2014 | Journal article
DOI: 10.1186/1756-0500-7-651
PMID: 25228073
PMC: PMC4180129
Contributors: Moreno-Hagelsieb G; Hudy-Yuffa B
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Isolation and characterization of genetic variability in bacteria with β-hemolytic and antifungal activity isolated from the rhizosphere of Medicago truncatula plants.

2014 | Journal article
DOI: 10.4238/2014.July.4.11
PMID: 25062484
Contributors: Hernández-Salmerón JE; Prieto-Barajas CM; Valencia-Cantero E; Moreno-Hagelsieb G; Santoyo G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Quickly finding orthologs as reciprocal best hits with BLAT, LAST, and UBLAST: how much do we miss?

2014 | Journal article
DOI: 10.1371/journal.pone.0101850
PMID: 25013894
PMC: PMC4094424
Contributors: Ward N; Moreno-Hagelsieb G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

The loose evolutionary relationships between transcription factors and other gene products across prokaryotes.

2014 | Journal article
DOI: 10.1186/1756-0500-7-928
PMID: 25515977
PMC: PMC4300776
Contributors: del Grande M; Moreno-Hagelsieb G
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Evaluating bias of illumina-based bacterial 16S rRNA gene profiles.

2014-09 | Journal article
DOI: 10.1128/AEM.01451-14
PMID: 25002428
PMC: PMC4178620
Contributors: Kennedy K; Hall MW; Lynch MD; Moreno-Hagelsieb G; Neufeld JD
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Quantitative genome-wide genetic interaction screens reveal global epistatic relationships of protein complexes in Escherichia coli.

2014-02 | Journal article
DOI: 10.1371/journal.pgen.1004120
PMID: 24586182
PMC: PMC3930520
Contributors: Babu M; Arnold R; Bundalovic-Torma C; Gagarinova A; Wong KS; Kumar A; Stewart G; Samanfar B; Aoki H; Wagih O et al.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Europe PubMed Central

Meeting report: 1st international functional metagenomics workshop may 7-8, 2012, St. Jacobs, Ontario, Canada

Standards in Genomic Sciences
2013 | Journal article
DOI: 10.4056/sigs.3406845
Contributors: Engel, K.; Ashby, D.; Brady, S.F.; Cowan, D.A.; Doemer, J.; Edwards, E.A.; Fiebig, K.; Martens, E.C.; Mccormac, D.; Mead, D.A. et al.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Scopus - Elsevier
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Phylogenomic clustering for selecting non-redundant genomes for comparative genomics

Bioinformatics
2013 | Journal article
DOI: 10.1093/bioinformatics/btt064
Contributors: Moreno-Hagelsieb, G.; Wang, Z.; Walsh, S.; Elsherbiny, A.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Scopus - Elsevier
grade
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Metagenomic annotation networks: Construction and applications

PLoS ONE
2012 | Journal article
DOI: 10.1371/journal.pone.0041283
Contributors: Vey, G.; Moreno-Hagelsieb, G.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Scopus - Elsevier
grade
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The evolutionary dynamics of functional modules and the extraordinary plasticity of regulons: The escherichia coli perspective

Nucleic Acids Research
2012 | Journal article
DOI: 10.1093/nar/gks443
Contributors: Moreno-Hagelsieb, G.; Jokic, P.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Scopus - Elsevier
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Bacterial biogeography of the human digestive tract

Scientific Reports
2011 | Journal article
DOI: 10.1038/srep00170
Contributors: Stearns, J.C.; Lynch, M.D.J.; Senadheera, D.B.; Tenenbaum, H.C.; Goldberg, M.B.; Cvitkovitch, D.G.; Croitoru, K.; Moreno-Hagelsieb, G.; Neufeld, J.D.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Scopus - Elsevier
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Generation of multimillion-sequence 16S rRNA gene libraries from complex microbial communities by assembling paired-end Illumina reads

Applied and Environmental Microbiology
2011 | Journal article
DOI: 10.1128/AEM.02772-10
Contributors: Bartram, A.K.; Lynch, M.D.J.; Stearns, J.C.; Moreno-Hagelsieb, G.; Neufeld, J.D.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Scopus - Elsevier
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Genetic interaction maps in Escherichia coli reveal functional crosstalk among cell envelope biogenesis pathways

PLoS Genetics
2011 | Journal article
DOI: 10.1371/journal.pgen.1002377
Contributors: Babu, M.; Díaz-Mejía, J.J.; Vlasblom, J.; Gagarinova, A.; Phanse, S.; Graham, C.; Yousif, F.; Ding, H.; Xiong, X.; Nazarians-Armavil, A. et al.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Scopus - Elsevier
grade
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Network-based function prediction and interactomics: The case for metabolic enzymes

Metabolic Engineering
2011 | Journal article
DOI: 10.1016/j.ymben.2010.07.001
Contributors: Janga, S.C.; Díaz-Mejía, J.; Moreno-Hagelsieb, G.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Scopus - Elsevier
grade
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Open resource metagenomics: A model for sharing metagenomic libraries

Standards in Genomic Sciences
2011 | Journal article
DOI: 10.4056/sigs.1974654
Contributors: Neufeld, J.D.; Engel, K.; Cheng, J.; Moreno-Hagelsieb, G.; Rose, D.R.; Charles, T.C.
Source: Self-asserted source
Gabo Moreno-Hagelsieb via Scopus - Elsevier
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Peer review (12 reviews for 6 publications/grants)

Review activity for Computational and Structural Biotechnology Journal (1)
Review activity for Genomics, Proteomics & Bioinformatics. (1)
Review activity for ISME communications. (1)
Review activity for Microbial genomics. (6)
Review activity for Nature communications (1)
Review activity for PLoS computational biology. (2)
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